HEADER CYTOKINE 02-NOV-07 3B93 TITLE CRYSTAL STRUCTURE OF HUMAN GITRL COMPND MOL_ID: 1; COMPND 2 MOLECULE: TUMOR NECROSIS FACTOR LIGAND SUPERFAMILY MEMBER 18; COMPND 3 CHAIN: A, B, C; COMPND 4 FRAGMENT: TNF DOMAIN; COMPND 5 SYNONYM: GLUCOCORTICOID-INDUCED TNF-RELATED LIGAND, HGITRL, COMPND 6 ACTIVATION-INDUCIBLE TNF-RELATED LIGAND, AITRL; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: TNFSF18, AITRL, GITRL, TL6; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET21A KEYWDS OPEN TRIMER, ASYMMETRIC, C2 SPACEGROUP, CYTOKINE, GLYCOPROTEIN, KEYWDS 2 MEMBRANE, SIGNAL-ANCHOR, TRANSMEMBRANE EXPDTA X-RAY DIFFRACTION AUTHOR X.M.SONG,Z.C.ZHOU REVDAT 3 13-JUL-11 3B93 1 VERSN REVDAT 2 24-FEB-09 3B93 1 VERSN REVDAT 1 12-FEB-08 3B93 0 JRNL AUTH X.M.SONG,Z.C.ZHOU,M.I.GREENE JRNL TITL CRYSTAL STRUCTURE OF HUMAN GITRL JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 75.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 90.8 REMARK 3 NUMBER OF REFLECTIONS : 16198 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.209 REMARK 3 R VALUE (WORKING SET) : 0.204 REMARK 3 FREE R VALUE : 0.280 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.900 REMARK 3 FREE R VALUE TEST SET COUNT : 1012 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.20 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.25 REMARK 3 REFLECTION IN BIN (WORKING SET) : 935 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 71.81 REMARK 3 BIN R VALUE (WORKING SET) : 0.2430 REMARK 3 BIN FREE R VALUE SET COUNT : 43 REMARK 3 BIN FREE R VALUE : 0.3310 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2515 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 95 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 42.02 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.68000 REMARK 3 B22 (A**2) : 2.71000 REMARK 3 B33 (A**2) : -1.06000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.38000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.318 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.260 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.179 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 13.771 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.944 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.897 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2577 ; 0.025 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3500 ; 2.521 ; 1.958 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 309 ;10.364 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 107 ;35.060 ;25.888 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 433 ;21.583 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 3 ;13.064 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 391 ; 0.180 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1900 ; 0.011 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1243 ; 0.266 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1669 ; 0.326 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 128 ; 0.219 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 33 ; 0.239 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 6 ; 0.182 ; 0.200 REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 1641 ; 1.347 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2560 ; 2.091 ; 2.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1118 ; 3.067 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 940 ; 4.256 ; 4.500 REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 3 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 55 A 177 REMARK 3 ORIGIN FOR THE GROUP (A): 17.4825 -16.7596 -4.0232 REMARK 3 T TENSOR REMARK 3 T11: -0.0267 T22: -0.0135 REMARK 3 T33: -0.0012 T12: 0.0107 REMARK 3 T13: -0.0040 T23: -0.0037 REMARK 3 L TENSOR REMARK 3 L11: 0.7850 L22: 0.7406 REMARK 3 L33: 0.6128 L12: -0.3945 REMARK 3 L13: -0.0785 L23: 0.3061 REMARK 3 S TENSOR REMARK 3 S11: 0.0535 S12: -0.0245 S13: 0.0350 REMARK 3 S21: -0.0095 S22: -0.0054 S23: -0.0227 REMARK 3 S31: 0.0857 S32: 0.0105 S33: -0.0481 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 57 B 177 REMARK 3 ORIGIN FOR THE GROUP (A): 0.2759 -19.6045 -20.1800 REMARK 3 T TENSOR REMARK 3 T11: -0.0565 T22: 0.1079 REMARK 3 T33: -0.0601 T12: 0.0013 REMARK 3 T13: 0.0021 T23: -0.0290 REMARK 3 L TENSOR REMARK 3 L11: 1.8518 L22: 0.7628 REMARK 3 L33: 1.5348 L12: -0.3352 REMARK 3 L13: -0.4168 L23: 0.1605 REMARK 3 S TENSOR REMARK 3 S11: 0.0527 S12: 0.4603 S13: -0.0748 REMARK 3 S21: 0.0778 S22: -0.0697 S23: -0.0321 REMARK 3 S31: -0.0899 S32: -0.2857 S33: 0.0170 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : C 57 C 176 REMARK 3 ORIGIN FOR THE GROUP (A): 21.2822 -15.5461 -28.2755 REMARK 3 T TENSOR REMARK 3 T11: -0.0762 T22: 0.0840 REMARK 3 T33: -0.0837 T12: 0.0212 REMARK 3 T13: 0.0053 T23: 0.0098 REMARK 3 L TENSOR REMARK 3 L11: 1.4441 L22: 2.6802 REMARK 3 L33: 3.6721 L12: 0.0840 REMARK 3 L13: 0.4025 L23: 0.4890 REMARK 3 S TENSOR REMARK 3 S11: -0.1818 S12: 0.1933 S13: 0.0605 REMARK 3 S21: -0.0534 S22: 0.1218 S23: -0.0447 REMARK 3 S31: -0.1999 S32: -0.0100 S33: 0.0600 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3B93 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 06-NOV-07. REMARK 100 THE RCSB ID CODE IS RCSB045232. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 06-JUL-06 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU MICROMAX-007 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 16198 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 75.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.9 REMARK 200 DATA REDUNDANCY : 5.000 REMARK 200 R MERGE (I) : 0.08000 REMARK 200 R SYM (I) : 0.08000 REMARK 200 FOR THE DATA SET : 127.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.28 REMARK 200 COMPLETENESS FOR SHELL (%) : 87.8 REMARK 200 DATA REDUNDANCY IN SHELL : 3.50 REMARK 200 R MERGE FOR SHELL (I) : 0.54700 REMARK 200 R SYM FOR SHELL (I) : 0.54700 REMARK 200 FOR SHELL : 5.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: MOUSE GITRL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 40.46 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.07 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2M LITHIUM SULFATE, 0.1M TRIS, 30% REMARK 280 PEG4000, PH 8.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z REMARK 290 4555 -X+1/2,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 52.20650 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 23.19200 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 52.20650 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 23.19200 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3430 ANGSTROM**2 REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 GLY A 45 REMARK 465 ALA A 46 REMARK 465 MET A 47 REMARK 465 ALA A 48 REMARK 465 SER A 49 REMARK 465 GLN A 50 REMARK 465 LEU A 51 REMARK 465 GLU A 52 REMARK 465 THR A 53 REMARK 465 ALA A 54 REMARK 465 GLY B 45 REMARK 465 ALA B 46 REMARK 465 MET B 47 REMARK 465 ALA B 48 REMARK 465 SER B 49 REMARK 465 GLN B 50 REMARK 465 LEU B 51 REMARK 465 GLU B 52 REMARK 465 THR B 53 REMARK 465 ALA B 54 REMARK 465 LYS B 55 REMARK 465 GLU B 56 REMARK 465 SER B 73 REMARK 465 SER B 74 REMARK 465 GLU B 75 REMARK 465 ASN B 104 REMARK 465 ALA B 105 REMARK 465 ASN B 106 REMARK 465 TYR B 107 REMARK 465 ASN B 108 REMARK 465 ASP B 109 REMARK 465 VAL B 110 REMARK 465 ALA B 111 REMARK 465 PRO B 112 REMARK 465 PHE B 113 REMARK 465 GLU B 114 REMARK 465 ASN B 129 REMARK 465 LYS B 130 REMARK 465 SER B 131 REMARK 465 GLN B 157 REMARK 465 VAL B 158 REMARK 465 LEU B 159 REMARK 465 LYS B 160 REMARK 465 GLY C 45 REMARK 465 ALA C 46 REMARK 465 MET C 47 REMARK 465 ALA C 48 REMARK 465 SER C 49 REMARK 465 GLN C 50 REMARK 465 LEU C 51 REMARK 465 GLU C 52 REMARK 465 THR C 53 REMARK 465 ALA C 54 REMARK 465 LYS C 55 REMARK 465 GLU C 56 REMARK 465 ASN C 104 REMARK 465 ALA C 105 REMARK 465 ASN C 106 REMARK 465 TYR C 107 REMARK 465 ASN C 108 REMARK 465 ASP C 109 REMARK 465 VAL C 110 REMARK 465 ALA C 111 REMARK 465 PRO C 112 REMARK 465 PHE C 113 REMARK 465 GLU C 114 REMARK 465 ASN C 129 REMARK 465 LYS C 130 REMARK 465 PHE C 152 REMARK 465 ASN C 153 REMARK 465 SER C 154 REMARK 465 GLU C 155 REMARK 465 HIS C 156 REMARK 465 GLN C 157 REMARK 465 VAL C 158 REMARK 465 LEU C 159 REMARK 465 LYS C 160 REMARK 465 ASN C 161 REMARK 465 ASN C 162 REMARK 465 SER C 177 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 LYS B 132 CG CD CE NZ REMARK 470 SER B 154 OG REMARK 470 GLU B 155 CG CD OE1 OE2 REMARK 470 HIS B 156 CG ND1 CD2 CE1 NE2 REMARK 470 ASN B 162 CG OD1 REMARK 470 GLN B 174 CG CD OE1 NE2 REMARK 470 VAL C 115 CG1 CG2 REMARK 470 LEU C 127 CG CD1 CD2 REMARK 470 SER C 131 OG REMARK 470 ILE C 133 CG1 CG2 CD1 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O HOH A 191 O HOH A 217 1.96 REMARK 500 O PRO A 173 N PHE A 175 2.08 REMARK 500 OD2 ASP A 109 O HOH A 234 2.09 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 ASN B 120 C ASN B 120 O 0.118 REMARK 500 LYS C 132 CE LYS C 132 NZ 0.250 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 LEU A 96 CA - CB - CG ANGL. DEV. = 14.7 DEGREES REMARK 500 LEU A 96 CB - CG - CD1 ANGL. DEV. = 11.0 DEGREES REMARK 500 ARG A 116 NE - CZ - NH2 ANGL. DEV. = -4.8 DEGREES REMARK 500 PRO A 173 C - N - CA ANGL. DEV. = -10.3 DEGREES REMARK 500 ASP B 122 CB - CG - OD2 ANGL. DEV. = 6.3 DEGREES REMARK 500 PRO C 64 C - N - CA ANGL. DEV. = 35.2 DEGREES REMARK 500 PRO C 64 C - N - CD ANGL. DEV. = -35.1 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 GLU A 56 -173.72 36.50 REMARK 500 LYS A 68 -133.07 -105.05 REMARK 500 ASN A 108 28.49 -150.58 REMARK 500 ASP A 109 -178.75 -58.95 REMARK 500 ASN A 120 -121.48 54.19 REMARK 500 ALA A 171 145.99 -178.29 REMARK 500 GLN A 174 30.14 -9.93 REMARK 500 PHE A 175 -52.62 -132.70 REMARK 500 LYS B 68 -135.39 -113.64 REMARK 500 SER B 83 -174.77 175.99 REMARK 500 ASN B 120 59.33 39.51 REMARK 500 ASN B 162 56.15 -95.21 REMARK 500 PRO C 64 123.28 43.39 REMARK 500 LYS C 68 -156.44 -113.61 REMARK 500 SER C 73 89.70 -39.24 REMARK 500 VAL C 82 -73.02 -107.76 REMARK 500 SER C 83 -140.33 -126.41 REMARK 500 TRP C 85 -7.49 78.19 REMARK 500 ALA C 102 163.41 151.12 REMARK 500 ASN C 120 -125.88 49.93 REMARK 500 LYS C 132 -16.99 -23.10 REMARK 500 VAL C 144 131.47 -39.31 REMARK 500 GLN C 174 -73.95 -20.82 REMARK 500 PHE C 175 -37.53 168.64 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 PRO A 173 GLN A 174 132.35 REMARK 500 ASN B 161 ASN B 162 148.10 REMARK 500 PHE C 62 GLY C 63 -43.85 REMARK 500 GLY C 63 PRO C 64 -120.65 REMARK 500 ALA C 72 SER C 73 -134.65 REMARK 500 GLN C 174 PHE C 175 -38.10 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CHIRAL CENTERS REMARK 500 REMARK 500 UNEXPECTED CONFIGURATION OF THE FOLLOWING CHIRAL REMARK 500 CENTER(S) USING IMPROPER CA--C--CB--N CHIRALITY REMARK 500 FOR AMINO ACIDS AND C1'--O4'--N1(N9)--C2' FOR REMARK 500 NUCLEIC ACIDS OR EQUIVALENT ANGLE REMARK 500 M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,6X,F5.1,6X,A1,10X,A1,3X,A16) REMARK 500 REMARK 500 M RES CSSEQI IMPROPER EXPECTED FOUND DETAILS REMARK 500 VAL A 82 23.5 L L OUTSIDE RANGE REMARK 500 ASN A 108 22.7 L L OUTSIDE RANGE REMARK 500 PHE A 175 21.7 L L OUTSIDE RANGE REMARK 500 VAL B 115 22.6 L L OUTSIDE RANGE REMARK 500 ARG B 116 22.0 L L OUTSIDE RANGE REMARK 500 SER C 73 24.4 L L OUTSIDE RANGE REMARK 500 LYS C 132 22.3 L L OUTSIDE RANGE REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3B94 RELATED DB: PDB DBREF 3B93 A 50 177 UNP Q9UNG2 TNF18_HUMAN 50 177 DBREF 3B93 B 50 177 UNP Q9UNG2 TNF18_HUMAN 50 177 DBREF 3B93 C 50 177 UNP Q9UNG2 TNF18_HUMAN 50 177 SEQADV 3B93 GLY A 45 UNP Q9UNG2 EXPRESSION TAG SEQADV 3B93 ALA A 46 UNP Q9UNG2 EXPRESSION TAG SEQADV 3B93 MET A 47 UNP Q9UNG2 EXPRESSION TAG SEQADV 3B93 ALA A 48 UNP Q9UNG2 EXPRESSION TAG SEQADV 3B93 SER A 49 UNP Q9UNG2 EXPRESSION TAG SEQADV 3B93 GLY B 45 UNP Q9UNG2 EXPRESSION TAG SEQADV 3B93 ALA B 46 UNP Q9UNG2 EXPRESSION TAG SEQADV 3B93 MET B 47 UNP Q9UNG2 EXPRESSION TAG SEQADV 3B93 ALA B 48 UNP Q9UNG2 EXPRESSION TAG SEQADV 3B93 SER B 49 UNP Q9UNG2 EXPRESSION TAG SEQADV 3B93 GLY C 45 UNP Q9UNG2 EXPRESSION TAG SEQADV 3B93 ALA C 46 UNP Q9UNG2 EXPRESSION TAG SEQADV 3B93 MET C 47 UNP Q9UNG2 EXPRESSION TAG SEQADV 3B93 ALA C 48 UNP Q9UNG2 EXPRESSION TAG SEQADV 3B93 SER C 49 UNP Q9UNG2 EXPRESSION TAG SEQRES 1 A 133 GLY ALA MET ALA SER GLN LEU GLU THR ALA LYS GLU PRO SEQRES 2 A 133 CYS MET ALA LYS PHE GLY PRO LEU PRO SER LYS TRP GLN SEQRES 3 A 133 MET ALA SER SER GLU PRO PRO CYS VAL ASN LYS VAL SER SEQRES 4 A 133 ASP TRP LYS LEU GLU ILE LEU GLN ASN GLY LEU TYR LEU SEQRES 5 A 133 ILE TYR GLY GLN VAL ALA PRO ASN ALA ASN TYR ASN ASP SEQRES 6 A 133 VAL ALA PRO PHE GLU VAL ARG LEU TYR LYS ASN LYS ASP SEQRES 7 A 133 MET ILE GLN THR LEU THR ASN LYS SER LYS ILE GLN ASN SEQRES 8 A 133 VAL GLY GLY THR TYR GLU LEU HIS VAL GLY ASP THR ILE SEQRES 9 A 133 ASP LEU ILE PHE ASN SER GLU HIS GLN VAL LEU LYS ASN SEQRES 10 A 133 ASN THR TYR TRP GLY ILE ILE LEU LEU ALA ASN PRO GLN SEQRES 11 A 133 PHE ILE SER SEQRES 1 B 133 GLY ALA MET ALA SER GLN LEU GLU THR ALA LYS GLU PRO SEQRES 2 B 133 CYS MET ALA LYS PHE GLY PRO LEU PRO SER LYS TRP GLN SEQRES 3 B 133 MET ALA SER SER GLU PRO PRO CYS VAL ASN LYS VAL SER SEQRES 4 B 133 ASP TRP LYS LEU GLU ILE LEU GLN ASN GLY LEU TYR LEU SEQRES 5 B 133 ILE TYR GLY GLN VAL ALA PRO ASN ALA ASN TYR ASN ASP SEQRES 6 B 133 VAL ALA PRO PHE GLU VAL ARG LEU TYR LYS ASN LYS ASP SEQRES 7 B 133 MET ILE GLN THR LEU THR ASN LYS SER LYS ILE GLN ASN SEQRES 8 B 133 VAL GLY GLY THR TYR GLU LEU HIS VAL GLY ASP THR ILE SEQRES 9 B 133 ASP LEU ILE PHE ASN SER GLU HIS GLN VAL LEU LYS ASN SEQRES 10 B 133 ASN THR TYR TRP GLY ILE ILE LEU LEU ALA ASN PRO GLN SEQRES 11 B 133 PHE ILE SER SEQRES 1 C 133 GLY ALA MET ALA SER GLN LEU GLU THR ALA LYS GLU PRO SEQRES 2 C 133 CYS MET ALA LYS PHE GLY PRO LEU PRO SER LYS TRP GLN SEQRES 3 C 133 MET ALA SER SER GLU PRO PRO CYS VAL ASN LYS VAL SER SEQRES 4 C 133 ASP TRP LYS LEU GLU ILE LEU GLN ASN GLY LEU TYR LEU SEQRES 5 C 133 ILE TYR GLY GLN VAL ALA PRO ASN ALA ASN TYR ASN ASP SEQRES 6 C 133 VAL ALA PRO PHE GLU VAL ARG LEU TYR LYS ASN LYS ASP SEQRES 7 C 133 MET ILE GLN THR LEU THR ASN LYS SER LYS ILE GLN ASN SEQRES 8 C 133 VAL GLY GLY THR TYR GLU LEU HIS VAL GLY ASP THR ILE SEQRES 9 C 133 ASP LEU ILE PHE ASN SER GLU HIS GLN VAL LEU LYS ASN SEQRES 10 C 133 ASN THR TYR TRP GLY ILE ILE LEU LEU ALA ASN PRO GLN SEQRES 11 C 133 PHE ILE SER FORMUL 4 HOH *95(H2 O) SHEET 1 A 5 TRP A 69 ALA A 72 0 SHEET 2 A 5 MET A 59 PHE A 62 -1 N MET A 59 O ALA A 72 SHEET 3 A 5 TYR A 164 ALA A 171 -1 O TRP A 165 N PHE A 62 SHEET 4 A 5 GLY A 93 VAL A 101 -1 N LEU A 94 O ALA A 171 SHEET 5 A 5 GLN A 134 ASN A 135 -1 O GLN A 134 N VAL A 101 SHEET 1 B 5 TRP A 69 ALA A 72 0 SHEET 2 B 5 MET A 59 PHE A 62 -1 N MET A 59 O ALA A 72 SHEET 3 B 5 TYR A 164 ALA A 171 -1 O TRP A 165 N PHE A 62 SHEET 4 B 5 GLY A 93 VAL A 101 -1 N LEU A 94 O ALA A 171 SHEET 5 B 5 GLY A 138 LEU A 142 -1 O GLY A 138 N ILE A 97 SHEET 1 C 5 VAL A 79 SER A 83 0 SHEET 2 C 5 LYS A 86 ILE A 89 -1 O GLU A 88 N ASN A 80 SHEET 3 C 5 THR A 147 PHE A 152 -1 O ILE A 148 N LEU A 87 SHEET 4 C 5 VAL A 115 LYS A 119 -1 N ARG A 116 O ILE A 151 SHEET 5 C 5 ASP A 122 LEU A 127 -1 O ASP A 122 N LYS A 119 SHEET 1 D 5 TRP B 69 MET B 71 0 SHEET 2 D 5 MET B 59 PHE B 62 -1 N LYS B 61 O GLN B 70 SHEET 3 D 5 TYR B 164 ALA B 171 -1 O TRP B 165 N PHE B 62 SHEET 4 D 5 GLY B 93 VAL B 101 -1 N LEU B 96 O ILE B 168 SHEET 5 D 5 GLN B 134 ASN B 135 -1 O GLN B 134 N VAL B 101 SHEET 1 E 5 TRP B 69 MET B 71 0 SHEET 2 E 5 MET B 59 PHE B 62 -1 N LYS B 61 O GLN B 70 SHEET 3 E 5 TYR B 164 ALA B 171 -1 O TRP B 165 N PHE B 62 SHEET 4 E 5 GLY B 93 VAL B 101 -1 N LEU B 96 O ILE B 168 SHEET 5 E 5 GLY B 138 LEU B 142 -1 O LEU B 142 N GLY B 93 SHEET 1 F 5 VAL B 79 SER B 83 0 SHEET 2 F 5 LYS B 86 ILE B 89 -1 O GLU B 88 N ASN B 80 SHEET 3 F 5 THR B 147 ILE B 151 -1 O ILE B 148 N LEU B 87 SHEET 4 F 5 ARG B 116 LYS B 119 -1 N ARG B 116 O ILE B 151 SHEET 5 F 5 ASP B 122 THR B 126 -1 O ILE B 124 N LEU B 117 SHEET 1 G 5 TRP C 69 ALA C 72 0 SHEET 2 G 5 MET C 59 PHE C 62 -1 N MET C 59 O ALA C 72 SHEET 3 G 5 THR C 147 ALA C 171 -1 O ILE C 167 N ALA C 60 SHEET 4 G 5 GLY C 93 LYS C 119 -1 N ARG C 116 O ILE C 151 SHEET 5 G 5 ASP C 122 GLN C 125 -1 O GLN C 125 N LEU C 117 SHEET 1 H 5 VAL C 79 LYS C 81 0 SHEET 2 H 5 LEU C 87 ILE C 89 -1 O GLU C 88 N ASN C 80 SHEET 3 H 5 THR C 147 ALA C 171 -1 O ILE C 148 N LEU C 87 SHEET 4 H 5 GLY C 93 LYS C 119 -1 N ARG C 116 O ILE C 151 SHEET 5 H 5 GLY C 138 LEU C 142 -1 O TYR C 140 N TYR C 95 SSBOND 1 CYS A 58 CYS A 78 1555 1555 2.00 SSBOND 2 CYS B 58 CYS B 78 1555 1555 2.08 SSBOND 3 CYS C 58 CYS C 78 1555 1555 2.00 CISPEP 1 GLU A 56 PRO A 57 0 -9.94 CISPEP 2 GLY A 63 PRO A 64 0 -3.08 CISPEP 3 LEU A 65 PRO A 66 0 5.51 CISPEP 4 GLU A 75 PRO A 76 0 -0.54 CISPEP 5 ILE A 176 SER A 177 0 5.00 CISPEP 6 GLY B 63 PRO B 64 0 -5.70 CISPEP 7 LEU B 65 PRO B 66 0 8.84 CISPEP 8 LEU C 65 PRO C 66 0 14.66 CISPEP 9 GLU C 75 PRO C 76 0 -15.50 CISPEP 10 ALA C 102 PRO C 103 0 21.76 CRYST1 104.413 46.384 76.460 90.00 91.56 90.00 C 1 2 1 12 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.009577 0.000000 0.000261 0.00000 SCALE2 0.000000 0.021559 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013084 0.00000